On Bio-ITWorld.com last week was an excellent article by BIoTeam's Aaron Kitzmiller on the different approaches to structuring an internal bioinformatics department, and the pros and cons of each method. I can't add much to the subject that Aaron hasn't already said, so here's a link to the article: http://www.bio-itworld.com/2012/01/11/unstable-equilibrium-bioinformatics-org-chart.html
I'd be interested to hear our readers' opinions on their experiences with their own in-house bioinformatics departments and how the structure of those departments affects their ability to meet the needs of the customer (aka. the scientist). Comments below please!